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8 results on '"Medvedovic, Mario"'

1. SigCom LINCS: data and metadata search engine for a million gene expression signatures

Author

Evangelista, John Erol, primary, Clarke, Daniel J B, additional, Xie, Zhuorui, additional, Lachmann, Alexander, additional, Jeon, Minji, additional, Chen, Kerwin, additional, Jagodnik, Kathleen M, additional, Jenkins, Sherry L, additional, Kuleshov, Maxim V, additional, Wojciechowicz, Megan L, additional, Schürer, Stephan C, additional, Medvedovic, Mario, additional, and Ma’ayan, Avi, additional

Published
2022
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2. piNET: a versatile web platform for downstream analysis and visualization of proteomics data

Author

Shamsaei, Behrouz, primary, Chojnacki, Szymon, primary, Pilarczyk, Marcin, primary, Najafabadi, Mehdi, primary, Niu, Wen, primary, Chen, Chuming, primary, Ross, Karen, primary, Matlock, Andrea, primary, Muhlich, Jeremy, primary, Chutipongtanate, Somchai, primary, Zheng, Jie, primary, Turner, John, primary, Vidović, Dušica, primary, Jaffe, Jake, primary, MacCoss, Michael, primary, Wu, Cathy, primary, Pillai, Ajay, primary, Ma’ayan, Avi, primary, Schürer, Stephan, primary, Kouril, Michal, primary, Medvedovic, Mario, primary, and Meller, Jarek, primary

Published
2020
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4. LINCS Data Portal 2.0: next generation access point for perturbation-response signatures

Author

Stathias, Vasileios, primary, Turner, John, primary, Koleti, Amar, primary, Vidovic, Dusica, primary, Cooper, Daniel, primary, Fazel-Najafabadi, Mehdi, primary, Pilarczyk, Marcin, primary, Terryn, Raymond, primary, Chung, Caty, primary, Umeano, Afoma, primary, Clarke, Daniel J B, primary, Lachmann, Alexander, primary, Evangelista, John Erol, primary, Ma’ayan, Avi, primary, Medvedovic, Mario, primary, and Schürer, Stephan C, primary

Published
2019
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6. Data Portal for the Library of Integrated Network-based Cellular Signatures (LINCS) program: integrated access to diverse large-scale cellular perturbation response data

Author

Koleti, Amar, primary, Terryn, Raymond, additional, Stathias, Vasileios, additional, Chung, Caty, additional, Cooper, Daniel J, additional, Turner, John P, additional, Vidović, Dušica, additional, Forlin, Michele, additional, Kelley, Tanya T, additional, D’Urso, Alessandro, additional, Allen, Bryce K, additional, Torre, Denis, additional, Jagodnik, Kathleen M, additional, Wang, Lily, additional, Jenkins, Sherry L, additional, Mader, Christopher, additional, Niu, Wen, additional, Fazel, Mehdi, additional, Mahi, Naim, additional, Pilarczyk, Marcin, additional, Clark, Nicholas, additional, Shamsaei, Behrouz, additional, Meller, Jarek, additional, Vasiliauskas, Juozas, additional, Reichard, John, additional, Medvedovic, Mario, additional, Ma’ayan, Avi, additional, Pillai, Ajay, additional, and Schürer, Stephan C, additional

Published
2017
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8. Data Portal for the Library of Integrated Network-based Cellular Signatures (LINCS) program: integrated access to diverse large-scale cellular perturbation response data.

Author

Koleti A, Terryn R, Stathias V, Chung C, Cooper DJ, Turner JP, Vidovic D, Forlin M, Kelley TT, D'Urso A, Allen BK, Torre D, Jagodnik KM, Wang L, Jenkins SL, Mader C, Niu W, Fazel M, Mahi N, Pilarczyk M, Clark N, Shamsaei B, Meller J, Vasiliauskas J, Reichard J, Medvedovic M, Ma'ayan A, Pillai A, and Schürer SC

Subjects
Cell Biology, Computational Biology, Data Curation, Databases, Genetic, Epigenomics, Humans, Metadata, Proteomics, Software, Systems Biology, User-Computer Interface, Databases, Factual
Abstract

The Library of Integrated Network-based Cellular Signatures (LINCS) program is a national consortium funded by the NIH to generate a diverse and extensive reference library of cell-based perturbation-response signatures, along with novel data analytics tools to improve our understanding of human diseases at the systems level. In contrast to other large-scale data generation efforts, LINCS Data and Signature Generation Centers (DSGCs) employ a wide range of assay technologies cataloging diverse cellular responses. Integration of, and unified access to LINCS data has therefore been particularly challenging. The Big Data to Knowledge (BD2K) LINCS Data Coordination and Integration Center (DCIC) has developed data standards specifications, data processing pipelines, and a suite of end-user software tools to integrate and annotate LINCS-generated data, to make LINCS signatures searchable and usable for different types of users. Here, we describe the LINCS Data Portal (LDP) (http://lincsportal.ccs.miami.edu/), a unified web interface to access datasets generated by the LINCS DSGCs, and its underlying database, LINCS Data Registry (LDR). LINCS data served on the LDP contains extensive metadata and curated annotations. We highlight the features of the LDP user interface that is designed to enable search, browsing, exploration, download and analysis of LINCS data and related curated content., (© The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.)

Published
2018
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